discoAnt

• version 07082022
• tested on conda v4.12.0

Updates in v2.1

• optional primer site based filter
• report: includes statistics for the FASTA files and number of known and novel transcripts
• edits to the transcript file output for compatibility with IsoMix

Prepare FASTA files in a folder

All the sample files (pass-reads only) should be in FASTA format (.fa)

Setting up discoAnt

1. Downloading the workflow with git clone

2. Downloading relevant reference file and creating a conda environment
   cd discoAnt
bash discoAnt_setup.sh

3. Running a test script to check installation
   conda activate discoAnt
bash discoAnt_v2_SIRV_test.sh

4. Update discoAnt_params.txt with gene info and paths to relevant folders before running the workflow with the data set of your choice
   conda activate discoAnt.env
bash discoAnt_v2.1.sh

Refer to the sample submission scripts for running the pipeline on a HPC cluster.

Workflow